Seroatlas · Human Serome Atlas

HDAC3

Histone deacetylase 3

Also known as: HD3, HDAC3_HUMAN, KDAC3, RPD3, RPD3-2

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
O15379
Gene
HDAC3
Ensembl
ENSG00000171720
Chromosome
5
Canonical length
428 aa
Protein class
Enzymes, FDA approved drug targets, Metabolic proteins, Predicted intracellular proteins
Subcellular location
Nucleoplasm,Golgi apparatus

OverviewNCBI Gene

Histones play a critical role in transcriptional regulation, cell cycle progression, and developmental events. Histone acetylation/deacetylation alters chromosome structure and affects transcription factor access to DNA. The protein encoded by this gene belongs to the histone deacetylase/acuc/apha family. It has histone deacetylase activity and represses transcription when tethered to a promoter. It may participate in the regulation of transcription through its binding with the zinc-finger transcription factor YY1. This protein can also down-regulate p53 function and thus modulate cell growth and apoptosis. This gene is regarded as a potential tumor suppressor gene. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

428 residues, UniProt reviewed canonical sequence.

>O15379|HDAC3
     1  MAKTVAYFYD PDVGNFHYGA GHPMKPHRLA LTHSLVLHYG LYKKMIVFKP YQASQHDMCR
    61  FHSEDYIDFL QRVSPTNMQG FTKSLNAFNV GDDCPVFPGL FEFCSRYTGA SLQGATQLNN
   121  KICDIAINWA GGLHHAKKFE ASGFCYVNDI VIGILELLKY HPRVLYIDID IHHGDGVQEA
   181  FYLTDRVMTV SFHKYGNYFF PGTGDMYEVG AESGRYYCLN VPLRDGIDDQ SYKHLFQPVI
   241  NQVVDFYQPT CIVLQCGADS LGCDRLGCFN LSIRGHGECV EYVKSFNIPL LVLGGGGYTV
   301  RNVARCWTYE TSLLVEEAIS EELPYSEYFE YFAPDFTLHP DVSTRIENQN SRQYLDQIRQ
   361  TIFENLKMLN HAPSVQIHDV PADLLTYDRT DEADAEERGP EENYSRPEAP NEFYDGDHDN
   421  DKESDVEI

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against HDAC3 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Intracellular
Secreted
No
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.25
Highest tissue expression
42 nTPM

Expression across tissuesHPA

Tissue

  • parathyroid gland: 42 nTPM
  • tonsil: 40 nTPM
  • skin: 40 nTPM
  • skeletal muscle: 39 nTPM
  • adrenal gland: 39 nTPM
  • liver: 37 nTPM

Single-cell type

  • esophageal apical cells: 87 nCPM
  • adrenal cortex cells: 81 nCPM
  • esophageal basal cells: 79 nCPM
  • esophageal suprabasal cells: 77 nCPM
  • syncytiotrophoblasts: 76 nCPM
  • suprabasal keratinocytes: 75 nCPM

Immune cell

  • myeloid DC: 108 nTPM
  • T-reg: 56 nTPM
  • plasmacytoid DC: 55 nTPM
  • intermediate monocyte: 54 nTPM
  • classical monocyte: 52 nTPM
  • memory B-cell: 48 nTPM

Brain region

  • choroid plexus: 13 nTPM
  • cerebral cortex: 10 nTPM
  • thalamus: 10 nTPM
  • spinal cord: 10 nTPM
  • hypothalamus: 10 nTPM
  • medulla oblongata: 9.8 nTPM

ReferencesPubMed · IEDB

Publications for HDAC3 from three distinct lines of evidence, kept separate because they answer different questions: whether antibodies are directed at the protein, whether a B-cell epitope has been mapped on it, and whether a T-cell epitope has. Each is labelled with its source.

Reference: AutoantibodyPubMed

1 publication

Sources: PubMed — antigen-level antibody evidence from a custom retrieval. Records matching a controlled set of autoantibody terms (the MeSH descriptors Autoantibodies and Autoantigens, with title and abstract term variants) were obtained through NCBI E-utilities, and their titles and abstracts parsed for constructions that direct an antibody at a named protein rather than for co-occurrence. Captured names were resolved against UniProt nomenclature and each antigen adjudicated individually against the source text. Bibliographic records from PubMed and MeSH, U.S. National Library of Medicine; citation metrics from NIH iCite (Hutchins et al., PLoS Biology 2016). Titles link to PubMed; abstracts are not reproduced here. The NLM does not endorse this analysis.

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.41
gnomAD pLI
0.57
gnomAD missense Z
3.72
DepMap mean gene effect
-0.93
DepMap dependency class
common

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 6% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of HDAC3 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads HDAC3 as an antibody target. Whether an autoantibody or antibody against HDAC3 could matter depends on whether native HDAC3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

HDAC3 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label HDAC3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/HDAC3. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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